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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

SLC39A12 Gene

protein-coding   GIFtS: 47
GCID: GC10P018280

solute carrier family 39 (zinc transporter), member 12

(Previous names: solute carrier family 39 (metal ion transporter), member...)
 Explore 4 diseases affiliated with
SLC39A12 via our new
 Human Malady Compendium 
Biological research products
for SLC39A12
    

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, and/or 10fRNAdb)
About This Section

Aliases
Solute Carrier Family 39 (Zinc Transporter), Member 121 2     LIV-1 Subfamily Of ZIP Zinc Transporter 82 3
Solute Carrier Family 39 (Metal Ion Transporter), Member 121 2     FLJ304991
Solute Carrier Family 39 Member 122 3     BA570F3.11
Zrt- And Irt-Like Protein 122 3     Zinc Transporter ZIP122
LZT-Hs82 3     ZIP123
ZIP-122 3     

External Ids:    HGNC: 208601   Entrez Gene: 2210742   Ensembl: ENSG000001484827   OMIM: 6087345   UniProtKB: Q504Y03   

Export aliases for SLC39A12 gene to outside databases

Previous GC identifers: GC00U912990 GC10P018244 GC10P017906


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for SLC39A12:
Zinc is an essential cofactor for hundreds of enzymes. It is involved in protein, nucleic acid, carbohydrate, and lipid
metabolism, as well as in the control of gene transcription, growth, development, and differentiation. SLC39A12
belongs to a subfamily of proteins that show structural characteristics of zinc transporters (Taylor and Nicholson,
2003 (PubMed 12659941)).(supplied by OMIM, Aug 2008)

UniProtKB/Swiss-Prot: S39AC_HUMAN, Q504Y0
Function: Acts as a zinc-influx transporter (Potential). May be partly involved in the outbreak of schizophrenia




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 69), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000010.10  NC_018921.1  NT_008705.16  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the SLC39A12 gene promoter:
         AML1a   HTF   CUTL1   NF-E2 p45   POU3F2   E4BP4   C/EBPalpha   CHOP-10   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLC39A12 promoter sequence
   Search SABiosciences Chromatin IP Primers for SLC39A12

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat SLC39A12


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 10p12.33   Ensembl cytogenetic band:  10p12.33   HGNC cytogenetic band: 10p12.33

SLC39A12 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLC39A12 gene location

GeneLoc information about chromosome 10         GeneLoc Exon Structure

GeneLoc location for GC10P018280:  view genomic region     (about GC identifiers)

Start:
18,240,768 bp from pter      End:
18,332,221 bp from pter
Size:
91,454 bases      Orientation:
plus strand

1 alternative location:
Chr10+,PATCHES 18,117,303-18,127,345     

(According to 1UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to 2PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE MOPED and PaxDb, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Uscn,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Uscn, Ontologies according to Gene Ontology Consortium 01 Mar 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, and/or Uscn)
About This Section

UniProtKB/Swiss-Prot: S39AC_HUMAN, Q504Y0 (See protein sequence)
Recommended Name: Zinc transporter ZIP12  
Size: 691 amino acids; 76666 Da
Subcellular location: Membrane; Multi-pass membrane protein (Potential)
Secondary accessions: B7ZL35 C9JJL4 Q49AN8 Q4G0L3 Q5VWV8 Q5VWV9 Q6NZY5 Q96NN4
Alternative splicing: 4 isoforms:  Q504Y0-1   Q504Y0-2   Q504Y0-3   Q504Y0-4   (No experimental confirmation available)

Explore the universe of human proteins at neXtProt for SLC39A12: NX_Q504Y0

Post-translational modifications:

  • View modification sites using PhosphoSitePlus2
  • View neXtProt modification sites for NX_Q504Y0

  • SLC39A12 Protein expression data from MOPED and PaxDb:    About this image 
    Estimated protein expression log10 (pmol).

    REFSEQ proteins (2 alternative transcripts): 
    NP_001138667.1  NP_689938.2  

    ENSEMBL proteins: 
     ENSP00000366591   ENSP00000366588   ENSP00000366586   ENSP00000440445  

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    Uscn Proteins for SLC39A12

    Gene Ontology (GO): 2 cellular component terms (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0016020membrane ----
    GO:0016021integral to membrane IEA--


    SLC39A12 for ontologies           About GeneDecksing



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    (According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section

    SLC39A12 for domains           About GeneDecksing

    1 InterPro domain/family:
     IPR003689 ZIP

    Graphical View of Domain Structure for InterPro Entry Q504Y0

    ProtoNet protein and cluster: Q504Y0

    1 Blocks protein family: IPB003689 Zinc transporter ZIP

    UniProtKB/Swiss-Prot: S39AC_HUMAN, Q504Y0
    Similarity: Belongs to the ZIP transporter (TC 2.A.5) family


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, and Vector BioLabs, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene.)
    About This Section

    Function Summary:

         UniProtKB/Swiss-Prot: S39AC_HUMAN, Q504Y0
    Function: Acts as a zinc-influx transporter (Potential). May be partly involved in the outbreak of schizophrenia

    miRNA
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    hsa-miR-3163
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    Inhib. RNA
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    Gene Ontology (GO): 1 molecular function term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0046873metal ion transmembrane transporter activity IEA--


    SLC39A12 for ontologies           About GeneDecksing


    3 GenomeRNAi human phenotypes for SLC39A12:
     Increased circadian rhythm amp  Increased gamma-H2AX phosphory  Increased homologous recombina 


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Mar 2013 via Entrez Gene).
    About This Section



    Interactions:

        Search SABiosciences Gene Network CentralTM Interacting Genes and Proteins Networks for SLC39A12

    Gene Ontology (GO): 1 biological process term (GO ID links to tree view):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006829zinc ion transport IEA--


    SLC39A12 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section
    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for SLC39A12
    Search CenterWatch for drugs/clinical trials and news about SLC39A12 / S39AC 

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 235 Homo sapiens; Mar 10 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for SLC39A12 gene (2 alternative transcripts): 
    NM_001145195.1  NM_152725.3  

    Unigene Cluster for SLC39A12:

    Solute carrier family 39 (zinc transporter), member 12
    Hs.350895  [show with all ESTs]
    Unigene Representative Sequence: NM_001145195
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000377374 ENST00000377371 ENST00000377369(uc001ipo.2 uc001ipn.2 uc001ipp.2 uc010qck.1)
    ENST00000539911

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    1 QIAGEN miScript miRNA Assays for microRNA that regulate SLC39A12:
    hsa-miR-3163
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    Inhib. RNA
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    Additional cDNA sequence: 

    AK055061.1 AK295294.1 AK303735.1 BC035118.1 BC047635.1 BC065917.1 BC094700.1 BC117323.1 
    BC143551.1 

    3 DOTS entries:

    DT.40307674  DT.100685984  DT.99957548 

    24/27 AceView cDNA sequences (see all 27):

    CA394889 AA317203 BC047635 BG704677 BC065917 AK055061 CD104800 BI480768 
    BP350394 BQ636346 BC035118 BI916564 NM_152725 BM920889 BG704146 BI550618 
    BI544657 BG701781 BI547691 BG704089 BG108781 BP360953 BG702075 BF963263 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for SLC39A12    About this scheme

    ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5 ^ 6a · 6b ^ 7a · 7b ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13
    SP1:                                                                                                            
    SP2:                                                                                                            
    SP3:                                                        -     -                                             
    SP4:                                                                                -                           


    ECgene alternative splicing isoforms for SLC39A12

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    SLC39A12 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS
    CGAP TAG: AATTTTAGTA

    Microarray
    RNAseq (Illumina Body Map)
    (100×FPKM)½
    SAGE (Serial Analysis of Gene Expression)

    About this image

    SLC39A12 expression in embryonic tissues and stem cells
    Expression by the Database of Embryonic development, Stem cell research, and Regenerative medicine    About this table
    10 LifeMap In Vivo Development Anatomical Compartments/Cells 
    Tissue Anatomical Compartment CellCategory (developmental path)
    BrainChoroid PlexusMature Choroid Plexus CellsChoroid Plexus
    BrainCerebral CortexBrain
    BrainChoroid PlexusBrain
    BrainMedulla OblongataBrain
    Neural TubeDiencephalic Roof PlateNeural Tube
    Neural TubeDiencephalic Ventricular ZoneNeural Tube
    Neural TubeMesencephalic Ventricular ZoneNeural Tube
    Neural TubeMetencephalonNeural Tube
    Neural TubeTelencephalonNeural Tube
    Spinal CordPresumptive Spinal CordSpinal Cord
    Expression: Positive    Negative     Selective marker
    Experimental details: Curated     Microarrays     In-situ hybridization
    Stem Cell Differentiation: 2 LifeMap Cells 
    NameCategory
    Early limb mesenchymal cells (ELM cells) (Primary Cell)Bone, Cartilage, Limb
    Cardiomyocyte-like cells (Spontaneous differen...)

    See SLC39A12 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for SLC39A12

    SOURCE GeneReport for Unigene cluster: Hs.350895

    UniProtKB/Swiss-Prot: S39AC_HUMAN, Q504Y0
    Tissue specificity: Expressed in brain and eye

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    In Situ
    Assay Products:
     

     
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of eukaryotes.

    Orthologs for SLC39A12 gene from 7/19 species (see all 19)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Slc39a121 , 5 solute carrier family 39 (zinc transporter), member more1, 5 81.03(n)1
    78.17(a)1
      2 (10.56 cM)5
    2774681  NM_001012305.21  NP_001012305.11 
     143883165 
    chicken
    (Gallus gallus)
    Aves SLC39A121 solute carrier family 39 (zinc transporter), member more 70.19(n)
    64.11(a)
      420514  XM_418616.3  XP_418616.3 
    lizard
    (Anolis carolinensis)
    Reptilia SLC39A126
    --
    87(a)
    1 ↔ 1
    6(17923236-17926987)
    tropical clawed frog
    (Xenopus tropicalis)
    Amphibia Str.53212 Transcribed sequence with weak similarity to protein more 75.36(n)    BX743375.1 
    worm
    (Caenorhabditis elegans)
    Secernentea tag-1416
    Temporarily Assigned Gene name family member (tag-...
    25(a)
    possible ortholog
    IV(17364965-17366454)
    thale cress
    (Arabidopsis thaliana)
    eudicotyledons IAR16
    IAA-alanine resistance protein 1
    17(a)
    1 → many
    1(25521204-25524175)
    rice
    (Oryza sativa)
    Liliopsida --
    metal cation transporter, putative, expressed
    16(a)
    1 → many
    8(22984381-22992760)


    ENSEMBL Gene Tree for SLC39A12 (if available)
    TreeFam Gene Tree for SLC39A12 (if available) 

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for SLC39A12 gene
    SLC39A102  SLC39A52  SLC39A82  SLC39A142  SLC39A42  SLC39A132  SLC39A62  SLC39A72  
    4 SIMAP similar genes for SLC39A12 using alignment to 2 protein entries:     S39AC_HUMAN (see all proteins):
    SLC39A10    SLC39A8    SLC39A4    SLC39A14

    SLC39A12 for paralogs           About GeneDecksing



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/2025 NCBI SNPs in SLC39A12 are shown (see all 2025    About this table
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 10 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs105613561,2
    C,--17907298(+) AGTGA-/GTGTGTG 1 -- int11Minor allele frequency- GT:0.00NA 2
    rs110116551,2
    C,F,--18238791(+) GTGGTA/GGAGGT 2 -- us2k15Minor allele frequency- G:0.40NA WA 10
    rs2012358381,2
    --18238947(+) TTGGT-/CTCA  
            
    CTGAC
    2 -- us2k10--------
    rs1885725751,2
    --18238999(+) CAGTTC/TTTAAA 2 -- us2k10--------
    rs1445517911,2
    --18239071(+) GGTGGA/GTTCGT 2 -- us2k10--------
    rs1420894991,2
    C,--18239117(+) TCGCG-/GTGA  
            
    GTGTT
    2 -- us2k10--------
    rs567275491,2
    C--18239120(+) CGGTGAGTG/-  
            
    TTATA
    2 -- us2k11Minor allele frequency- -:0.50NA 2
    rs1392528741,2
    --18239200(+) AGGAGC/TGAAGC 2 -- us2k10--------
    rs1424758241,2
    --18239219(+) TTCCCG/TGTGAG 2 -- us2k10--------
    rs1927701421,2
    --18239232(+) TGACAG/TCTCAT 2 -- us2k10--------

    HapMap Linkage Disequilibrium report for SLC39A12 (18240768 - 18332221 bp)
    Structural Variations (Copy Number Variations, Insertions/Deletions, Inversions)
          Database of Genomic Variants (DGV) variations for SLC39A12: --

    SABiosciences Cancer Mutation PCR Assays
    QIAGEN SeqTarget long-range PCR primers in human, mouse, rat for resequencing SLC39A12
    DNA2.0 Custom Variant and Variant Library Synthesis for SLC39A12

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section

    SLC39A12 for disorders           About GeneDecksing

    OMIM gene information: 608734    OMIM disorders: --

    4 diseases for SLC39A12:    About MalaCards
    choroiditis    alzheimer's disease    schizophrenia    prostatitis

    Human Genome Epidemiology (HuGE) Navigator: SLC39A12 (3 documents)

    Export disorders for SLC39A12 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for SLC39A12 gene, integrated from 9 sources (see all 12):
    (articles sorted by number of sources associating them with SLC39A12)
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    1. Examination of the zinc transporter gene, SLC39A12. (PubMed id 16311021)1, 2 Bly M. (2006)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (2004)
    3. The LZT proteins; the LIV-1 subfamily of zinc transporters. (PubMed id 12659941)1, 3 Taylor K.M. and Nicholson R.I. (2003)
    4. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PubMed id 20379614)1 Rose J.E....Uhl G.R. (2010)
    5. Polymorphisms in mitochondrial genes and prostate can cer risk. (PubMed id 19064571)1 Wang L....Thibodeau S.N. (2008)
    6. The consensus coding sequences of human breast and colorectal cancers. (PubMed id 16959974)2 Sjoeblom T.... Velculescu V.E. (2006)
    7. A scan of chromosome 10 identifies a novel locus showing strong association with late-onset Alzheimer disease. (PubMed id 16385451)1 Grupe A....Goate A. (2006)
    8. Sequence comparison of human and mouse genes reveals a homologous block structure in the promoter regions. (PubMed id 15342556)2 Suzuki Y.... Sugano S. (2004)
    9. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S....Malek J. (2004)
    10. The DNA sequence and comparative analysis of human chromosome 10. (PubMed id 15164054)2 Deloukas P.... Rogers J. (2004)

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    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 221074 HGNC: 20860 AceView: SLC39A12 Ensembl:ENSG00000148482 euGenes: HUgn221074
    ECgene: SLC39A12 H-InvDB: SLC39A12

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for SLC39A12 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for SLC39A12 gene:
    Search GeneIP for patents involving SLC39A12

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